Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007249.1 Corchorus capsularis cultivar CVL-1 contig07270, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9040
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Found at i:2617 original size:9 final size:9
Alignment explanation
Indices: 2598--2633 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
2588 TCTGGTCGAA
2598 ATTTATTTTT
1 ATTT-TTTTT
2608 ATTTTTTTT
1 ATTTTTTTT
2617 ATTTTTTTT
1 ATTTTTTTT
2626 ATATTTTT
1 AT-TTTTT
2634 CGATATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:4212 original size:31 final size:30
Alignment explanation
Indices: 4153--4247 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 30
4143 GAGTGAGACG
* *
4153 AGCTTGTTAGACAGCGCTATGCAAAAACAA
1 AGCTTGTTGGACAGCGCTATGCACAAACAA
* *
4183 AGCTCTGTTGGACAGCCCTGTGCACAAACAA
1 AGCT-TGTTGGACAGCGCTATGCACAAACAA
* *
4214 AGCTTGTTAGG-GAGCGCTATGAACAAACAA
1 AGCTTGTT-GGACAGCGCTATGCACAAACAA
4244 AGCT
1 AGCT
4248 CTCCTCGATG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
30 27 0.49
31 28 0.51
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (30 bp):
AGCTTGTTGGACAGCGCTATGCACAAACAA
Found at i:4242 original size:30 final size:30
Alignment explanation
Indices: 4153--4247 Score: 104
Period size: 30 Copynumber: 3.1 Consensus size: 30
4143 GAGTGAGACG
*
4153 AGCTTGTTAGACAGCGCTATGCAA-AAACAA
1 AGCTTGTTAGGCAGCGCTATG-AACAAACAA
* * *
4183 AGCTCTGTT-GGACAGCCCTGTGCACAAACAA
1 AGCT-TGTTAGG-CAGCGCTATGAACAAACAA
*
4214 AGCTTGTTAGGGAGCGCTATGAACAAACAA
1 AGCTTGTTAGGCAGCGCTATGAACAAACAA
4244 AGCT
1 AGCT
4248 CTCCTCGATG
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
30 29 0.55
31 24 0.45
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (30 bp):
AGCTTGTTAGGCAGCGCTATGAACAAACAA
Found at i:4730 original size:300 final size:300
Alignment explanation
Indices: 4188--4818 Score: 1183
Period size: 300 Copynumber: 2.1 Consensus size: 300
4178 AACAAAGCTC
*
4188 TGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCT
1 TGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTATGAACAAACAAAGCTCTCCT
4253 CGATGTCCAAAGCATCAACTCTGCCCATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAG
66 CGATGTCCAAAGCATCAACTCTGCCCATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAG
4318 TGAGATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCGTAGAAGCCCAAAACCTCAAC
131 TGAGATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCGTAGAAGCCCAAAACCTCAAC
4383 TCTGAGCGGTTCTATGCAAAACATCATTTTTAGCGAAAGGCTCCTTCCAGATGCATTTTTTGCGC
196 TCTGAGCGGTTCTATGCAAAACATCATTTTTAGCGAAAGGCTCCTTCCAGATGCATTTTTTGCGC
* * *
4448 AACGAGTGCTGAAATGTCGT-CCGTCGAAGTGCGATGAGAT
261 AACGAGTGCTCAAATGTCGTGCC-TCGAAATGCAATGAGAT
*
4488 TGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCT
1 TGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTATGAACAAACAAAGCTCTCCT
*
4553 CGATGTCCAAAGCATCAACTCTGCGCATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAG
66 CGATGTCCAAAGCATCAACTCTGCCCATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAG
4618 TGAGATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCGTAGAAGCCCAAAACCTCAAC
131 TGAGATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCGTAGAAGCCCAAAACCTCAAC
4683 TCTGAGCGGTTCTATGCAAAACATCATTTTTAGCGAAAGGCTCCTTCCAGATGCATTTTTTGCGC
196 TCTGAGCGGTTCTATGCAAAACATCATTTTTAGCGAAAGGCTCCTTCCAGATGCATTTTTTGCGC
*
4748 TACGAGTGCTCAAATGTCGTGCCTCGAAATGCAATGAGAT
261 AACGAGTGCTCAAATGTCGTGCCTCGAAATGCAATGAGAT
4788 TGTTGGACAGCCCTGTGCACAAACAAAGCTT
1 TGTTGGACAGCCCTGTGCACAAACAAAGCTT
4819 TACTCGAAGT
Statistics
Matches: 323, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
300 321 0.99
301 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (300 bp):
TGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTATGAACAAACAAAGCTCTCCT
CGATGTCCAAAGCATCAACTCTGCCCATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAG
TGAGATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCGTAGAAGCCCAAAACCTCAAC
TCTGAGCGGTTCTATGCAAAACATCATTTTTAGCGAAAGGCTCCTTCCAGATGCATTTTTTGCGC
AACGAGTGCTCAAATGTCGTGCCTCGAAATGCAATGAGAT
Found at i:5506 original size:300 final size:300
Alignment explanation
Indices: 4942--5546 Score: 1036
Period size: 301 Copynumber: 2.0 Consensus size: 300
4932 CAGTGAGATG
4942 AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCGC
1 AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCGC
* * *
5007 ATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTG
66 ATTTGTATGCAACACATCGTTCTTAGCAGTTTGCCGGAGTGAAATGAACTTTTTGGACAGCCCTG
* *
5072 TGCAGAAACAAAGCTTTCTTAGAAGACCAAAACCTCAACTTTCAGCGGTTGTATGCAAAACATCC
131 TGCACAAACAAAGCTTTCCTAGAAGACCAAAACCTCAACTTTCAGCGGTTGTATGCAAAACATCC
5137 TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCACAAATGTCGTGCGTCG
196 TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCACAAATGTCGTGCGTCG
*
5202 AAGTGCGATGAGATTGTTGGACAGCCCTGAT-CACAAACAA
261 AAGTGCAATGAGATTGTTGGACAGCCCTG-TGCACAAACAA
5242 AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAAGCATCAACTCTGCG
1 AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCC-AAAGCATCAACTCTGCG
*
5307 CATTTGTATGCAACACATCGTTCTTAGCAGTTTGCCGGAGTGAAATGAACTTTTTGGATAGCCCT
65 CATTTGTATGCAACACATCGTTCTTAGCAGTTTGCCGGAGTGAAATGAACTTTTTGGACAGCCCT
* * *
5372 GTGGACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATC
130 GTGCACAAACAAAGCTTTCCTAGAAGACCAAAACCTCAACTTTCAGCGGTTGTATGCAAAACATC
* * *
5437 AC-TTTTAGCGAAAGG-TCATTCTAGATGCATTTTTTGCGCTACGAGTGCTCAAATGTCGTGCGT
195 -CTTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCACAAATGTCGTGCGT
*
5500 CGAAGTGCAATGAGATTTTTGGACAGCCCTGTGCACAAACAA
259 CGAAGTGCAATGAGATTGTTGGACAGCCCTGTGCACAAACAA
5542 AGCTT
1 AGCTT
5547 TCCTCGATGT
Statistics
Matches: 288, Mismatches: 14, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
299 1 0.00
300 135 0.47
301 151 0.52
302 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (300 bp):
AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCGC
ATTTGTATGCAACACATCGTTCTTAGCAGTTTGCCGGAGTGAAATGAACTTTTTGGACAGCCCTG
TGCACAAACAAAGCTTTCCTAGAAGACCAAAACCTCAACTTTCAGCGGTTGTATGCAAAACATCC
TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCACAAATGTCGTGCGTCG
AAGTGCAATGAGATTGTTGGACAGCCCTGTGCACAAACAA
Found at i:5612 original size:728 final size:728
Alignment explanation
Indices: 4214--5726 Score: 2571
Period size: 728 Copynumber: 2.1 Consensus size: 728
4204 GCACAAACAA
4214 AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCCC
1 AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCCC
4279 ATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTG
66 ATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTG
* *
4344 TGCAGAAACAAAGCTTTCGTAGAAGCCCAAAACCTCAACTCTGAGCGGTTCTATGCAAAACATCA
131 TGCAGAAACAAAGCTTTCGTAGAAGACCAAAACCTCAACTCTCAGCGGTTCTATGCAAAACATCA
* **
4409 TTTTTAGCGAAAGGCTCCTTCCAGATGCATTTTTTGCGCAACGAGTGCTGAAATGTCGTCCGTCG
196 TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCACAAATGTCGTCCGTCG
*
4474 AAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTATGCACA
261 AAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTATGAACA
*
4539 AACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCGCATTTGTATGCAACATATCGTTCTTA
326 AACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCGCATTTGTATGCAACACATCGTTCTTA
* * * *
4604 GCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCGTAGAAG
391 GCAGTTTGCCGGAGTGAAATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAG
* *
4669 CCCAAAACCTCAACTCTGAGCGGTTCTATGCAAAACATCATTTTTAGCGAAAGGCTCCTTCCAGA
456 CCCAAAACCTCAACTCTGAGCGGTTCTATGCAAAACATCACTTTTAGCGAAAGGCTCATTCCAGA
4734 TGCATTTTTTGCGCTACGAGTGCTCAAATGTCGTGCCTCGAAATGCAATGAGATTGTTGGACAGC
521 TGCATTTTTTGCGCTACGAGTGCTCAAATGTCGTGCCTCGAAATGCAATGAGATTGTTGGACAGC
*
4799 CCTGTGCACAAACAAAGCTTTACTCGAAGTCCAAAGCGTCAATTTTGCACATTTTTGTGCTAAAC
586 CCTGTGCACAAACAAAGCTTTACTCGAAGTCCAAAGCGTCAATTTTGCACATTTCTGTGCTAAAC
* * * **
4864 ATAGTTCTTAGCAGAACTCTTTCTGGATGTGTTTTTTCGTGCAACGAGTGCTGAAAAGTCGTGTG
651 ATAGTTCTTAGCAGAACTCTTTCTAGATGTATTTTTTCGCGCAACGAGTGCCCAAAAGTCGTGTG
*
4929 TCGCAGTGAGATG
716 TCGCAATGAGATG
*
4942 AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCGC
1 AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCCC
5007 ATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTG
66 ATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTG
* * * *
5072 TGCAGAAACAAAGCTTTCTTAGAAGACCAAAACCTCAACTTTCAGCGGTTGTATGCAAAACATCC
131 TGCAGAAACAAAGCTTTCGTAGAAGACCAAAACCTCAACTCTCAGCGGTTCTATGCAAAACATCA
*
5137 TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCACAAATGTCGTGCGTCG
196 TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCACAAATGTCGTCCGTCG
*
5202 AAGTGCGATGAGATTGTTGGACAGCCCTGAT-CACAAACAAAGCTTGTTAGGGAGCGCTATGAAC
261 AAGTGCGATGAGATTGTTGGACAGCCCTG-TGCACAAACAAAGCTTGTTAGGCAGCGCTATGAAC
5266 AAACAAAGCTCTCCTCGATGTCCAAAAGCATCAACTCTGCGCATTTGTATGCAACACATCGTTCT
325 AAACAAAGCTCTCCTCGATGTCC-AAAGCATCAACTCTGCGCATTTGTATGCAACACATCGTTCT
* *
5331 TAGCAGTTTGCCGGAGTGAAATGAACTTTTTGGATAGCCCTGTGGACAAACAAAGCTTTCCTAGA
389 TAGCAGTTTGCCGGAGTGAAATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGA
* * *
5396 AGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCACTTTTAGCGAAAGG-TCATTCTA
454 AGCCCAAAACCTCAACTCTGAGCGGTTCTATGCAAAACATCACTTTTAGCGAAAGGCTCATTCCA
* * *
5460 GATGCATTTTTTGCGCTACGAGTGCTCAAATGTCGTGCGTCGAAGTGCAATGAGATTTTTGGACA
519 GATGCATTTTTTGCGCTACGAGTGCTCAAATGTCGTGCCTCGAAATGCAATGAGATTGTTGGACA
* *
5525 GCCCTGTGCACAAACAAAGCTTTCCTCGATGTCCAAAGCGTCAATTTTGCACATTTCTGTGCTAA
584 GCCCTGTGCACAAACAAAGCTTTACTCGAAGTCCAAAGCGTCAATTTTGCACATTTCTGTGCTAA
* *
5590 ACATAGTTCTTAGCATAACTCTTTCTAGATGTATTTTTTCGCGCAATGAGTGCCCAAAAGTCGTG
649 ACATAGTTCTTAGCAGAACTCTTTCTAGATGTATTTTTTCGCGCAACGAGTGCCCAAAAGTCGTG
*
5655 TGTCGGAATGAGATG
714 TGTCGCAATGAGATG
* ** * * * *
5670 AGCTTTTTAGACAGCGCTATGCACAAACAAAGCTTTCCTCGAAGTCCAAAGCGTCAA
1 AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAA
5727 TTTTGCACAT
Statistics
Matches: 736, Mismatches: 47, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
728 583 0.79
729 153 0.21
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (728 bp):
AGCTTGTTAGGGAGCGCTATGAACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCCC
ATTTGTATGCAACATATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTG
TGCAGAAACAAAGCTTTCGTAGAAGACCAAAACCTCAACTCTCAGCGGTTCTATGCAAAACATCA
TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCACAAATGTCGTCCGTCG
AAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTATGAACA
AACAAAGCTCTCCTCGATGTCCAAAGCATCAACTCTGCGCATTTGTATGCAACACATCGTTCTTA
GCAGTTTGCCGGAGTGAAATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAG
CCCAAAACCTCAACTCTGAGCGGTTCTATGCAAAACATCACTTTTAGCGAAAGGCTCATTCCAGA
TGCATTTTTTGCGCTACGAGTGCTCAAATGTCGTGCCTCGAAATGCAATGAGATTGTTGGACAGC
CCTGTGCACAAACAAAGCTTTACTCGAAGTCCAAAGCGTCAATTTTGCACATTTCTGTGCTAAAC
ATAGTTCTTAGCAGAACTCTTTCTAGATGTATTTTTTCGCGCAACGAGTGCCCAAAAGTCGTGTG
TCGCAATGAGATG
Found at i:5915 original size:158 final size:158
Alignment explanation
Indices: 5455--5890 Score: 716
Period size: 158 Copynumber: 2.8 Consensus size: 158
5445 CGAAAGGTCA
* * * * * * *
5455 TTCTAGATGCATTTTTT-GCGCTACGAGTGCTCAAATGTCGTGCGTC-GAAGTGCA-ATGAGATT
1 TTCTAGATGTATTTTTTCGCGCAATGAGTGCCCAAAAGTCGTGTGTCGGAA-TG-AGATGAGCTT
* * * *
5517 TTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTCGATGTCCAAAGCGTCAATTTTGCACATTTC
64 TTTAGACAGCGCTATGCACAAACAAAGCTTTCCTCGAAGTCCAAAGCGTCAATTTTGCACATTTC
5582 TGTGCTAAACATAGTTCTTAGCATAACTCT
129 TGTGCTAAACATAGTTCTTAGCATAACTCT
5612 TTCTAGATGTATTTTTTCGCGCAATGAGTGCCCAAAAGTCGTGTGTCGGAATGAGATGAGCTTTT
1 TTCTAGATGTATTTTTTCGCGCAATGAGTGCCCAAAAGTCGTGTGTCGGAATGAGATGAGCTTTT
5677 TAGACAGCGCTATGCACAAACAAAGCTTTCCTCGAAGTCCAAAGCGTCAATTTTGCACATTTCTG
66 TAGACAGCGCTATGCACAAACAAAGCTTTCCTCGAAGTCCAAAGCGTCAATTTTGCACATTTCTG
5742 TGCTAAACATAGTTCTTAGCATAACTCT
131 TGCTAAACATAGTTCTTAGCATAACTCT
5770 TTCTAGATGTATTTTTTCGCGCAATGAGTGCCCAAAAGTCGTGTGTCGGAATGAGATGAGCTTTT
1 TTCTAGATGTATTTTTTCGCGCAATGAGTGCCCAAAAGTCGTGTGTCGGAATGAGATGAGCTTTT
* *
5835 TAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAATTTTGC
66 TAGACAGCGCTATGCACAAACAAAGCTTTCCTCGAAGTCCAAAGCGTCAATTTTGC
5891 GAGTTTGTGT
Statistics
Matches: 263, Mismatches: 13, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
157 17 0.06
158 243 0.92
159 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (158 bp):
TTCTAGATGTATTTTTTCGCGCAATGAGTGCCCAAAAGTCGTGTGTCGGAATGAGATGAGCTTTT
TAGACAGCGCTATGCACAAACAAAGCTTTCCTCGAAGTCCAAAGCGTCAATTTTGCACATTTCTG
TGCTAAACATAGTTCTTAGCATAACTCT
Found at i:6391 original size:300 final size:300
Alignment explanation
Indices: 5844--6432 Score: 903
Period size: 300 Copynumber: 2.0 Consensus size: 300
5834 TTAGACAGCG
* *
5844 CTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAATTTTGCGAGTTTGTGTGCAACACA
1 CTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACA
** * * * *
5909 TCGTTCTGAGCTGTTTGTCAGAGTGAGATGAGCTTTTTGGACAGCCCTGTGCAGAAACAAAGCTT
66 TCGTTCTGAGAAGTGTGTCAGAGTGAGATGAACTTTTTGAACAGCCCTGTGCACAAACAAAGCTT
* * *
5974 TCGTAGAAGCCCAAAACCTCAACTCTGAGCGATTCTATGCAAAACGTCATTTTTAGCGAAAGGCT
131 TCCTAGAAGCCCAAAACCTCAACTCTGAACGATTCTATGCAAAACATCATTTTTAGCGAAAGGCT
* * * * * *
6039 CCTTCCAGAAGCATTTTTTGCGCAACGAGTGCTCAAAAGTCGTGCGTCGAATTGCGATGAGATTG
196 CATTCAAGAAGCATTTTTTGCGCAACGAGTGCCCAAAAGTCGTGCATCGAATTGAGATGAGATTA
*
6104 TTGGACAACCCTGTGCACAAACAAAGCTTGTTAGGTAGCA
261 TTGGACAACCCTATGCACAAACAAAGCTTGTTAGGTAGCA
* *
6144 CTATGCACAAACAAAGCTCTCCTTGATGTCCAAAGCATCAACTTTGCGCA-TTTGTATGCAACAC
1 CTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCG-AGTTTGTATGCAACAC
* *
6208 ATCGTTCTTAGAAGTGTGTCGGAGTGAGATGAACTTTTTGAACAGCCCTGTGCACAAACAAAGCT
65 ATCGTTCTGAGAAGTGTGTCAGAGTGAGATGAACTTTTTGAACAGCCCTGTGCACAAACAAAGCT
* *
6273 TTCCTAGAAGCCCAAAATCTCAACTTTGAAC-AGTTCTATGCAAAACATCATTTTTAGCGAAAGG
130 TTCCTAGAAGCCCAAAACCTCAACTCTGAACGA-TTCTATGCAAAACATCATTTTTAGCGAAAGG
* *
6337 CTCATTCAAGATGCATTTTTTGCGCAACGAGTGCCCAAATGTCGTGCATCGAATTGAGATGAGAT
194 CTCATTCAAGAAGCATTTTTTGCGCAACGAGTGCCCAAAAGTCGTGCATCGAATTGAGATGAGAT
*
6402 TATTGGACAGCCCTATGCACAAACAAAGCTT
259 TATTGGACAACCCTATGCACAAACAAAGCTT
6433 TCACGAAGTC
Statistics
Matches: 260, Mismatches: 27, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
299 1 0.00
300 258 0.99
301 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (300 bp):
CTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACA
TCGTTCTGAGAAGTGTGTCAGAGTGAGATGAACTTTTTGAACAGCCCTGTGCACAAACAAAGCTT
TCCTAGAAGCCCAAAACCTCAACTCTGAACGATTCTATGCAAAACATCATTTTTAGCGAAAGGCT
CATTCAAGAAGCATTTTTTGCGCAACGAGTGCCCAAAAGTCGTGCATCGAATTGAGATGAGATTA
TTGGACAACCCTATGCACAAACAAAGCTTGTTAGGTAGCA
Found at i:6517 original size:569 final size:570
Alignment explanation
Indices: 5652--6702 Score: 1515
Period size: 569 Copynumber: 1.8 Consensus size: 570
5642 CCCAAAAGTC
* * * *
5652 GTGTGTCGGAATGAGATGAGCTTTTTAGACAGCGCTATGCACAAACAAAGCTTTCCTCGAAGTCC
1 GTGTGTCGGAATGAGATGAACTTTTTAGACAGCCCTATGCACAAACAAAGCTTTCCTAGAAGCCC
* * * * * * * *
5717 AAAGCGTCAATTTTGCACATTTCTGTGCTAAACATAGTTCTTAGCATAACTCTTTCTAGATGTAT
66 AAAGCGTCAACTTTGAACAGTTCTATGCAAAACATAGTTCTTAGCATAACTCATTCAAGATGCAT
* ** * * *
5782 TTTTTCGCGCAATGAGTGCCCAAAAGTCGTGTGTCGGAATGAGATGAGCTTTTTAGACAGCGCTA
131 TTTTTCGCGCAACGAGTGCCCAAAAGTCGTGCATCGGAATGAGATGAGATTATTAGACAGCCCTA
* * * *
5847 TGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAATTTTGCGAGTTTGTGTGCAACACATCG
196 TGCACAAACAAAGCTCTCCACGAAGTCCAAAGCATCAACTTTACGAGTTTGTATGCAACACATCG
* * ** * *
5912 TTCTGAGCTGTTTGTCAGAGTGAGATGAGCTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCG
261 TTCTGAGCGGTTTGTCAGAGTCAGATGAAATTTTTGGACAGCCCTATGCAGAAACAAAGCTTTCA
* *
5977 TAGAAGCCCAAAACCTCAACTCTGAGCGATTCTATGCAAAACGTCATTTTTAGCGAAAGGCTCCT
326 TAGAAGCCCAAAACCTCAACTCTGAGCGATTCTATGCAAAACATCATTTTTAGCGAAAGGCTCAT
*
6042 TCCAGAAGCATTTTTTGCG-CAACGAGTGCTCAAAAGTCGTGCGTCGAATTGCGATGAGATTGTT
391 TCCAGAAGCATTTTTTGCGTCAACGACTGCTCAAAAGTCGTGCGTCGAATTGCGATGAGATTGTT
6106 GGACAACCCTGTGCACAAACAAAGCTTGTTAGGTAGCACTATGCACAAACAAAGCTCTCCTTGAT
456 GGACAACCCTGTGCACAAACAAAGCTTGTTAGGTAGCACTATGCACAAACAAAGCTCTCCTTGAT
6171 GTCCAAAGCATCAACTTTGCGCATTTGTATGCAACACATCGTTCTTAGAA
521 GTCCAAAGCATCAACTTTGCGCATTTGTATGCAACACATCGTTCTTAGAA
* *
6221 GTGTGTCGGAGTGAGATGAACTTTTT-GAACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCC
1 GTGTGTCGGAATGAGATGAACTTTTTAG-ACAGCCCTATGCACAAACAAAGCTTTCCTAGAAGCC
* *
6285 CAAAATC-TCAACTTTGAACAGTTCTATGCAAAACATCA-TTTTTAGCGA-AAGGCTCATTCAAG
65 C-AAAGCGTCAACTTTGAACAGTTCTATGCAAAACAT-AGTTCTTAGC-ATAA--CTCATTCAAG
* *
6347 ATGCATTTTTT-GCGCAACGAGTGCCCAAATGTCGTGCATC-GAATTGAGATGAGATTATTGGAC
125 ATGCATTTTTTCGCGCAACGAGTGCCCAAAAGTCGTGCATCGGAA-TGAGATGAGATTATTAGAC
* *
6410 AGCCCTATGCACAAACAAAGCT-TTCACGAAGTCCAAAGCCTCAACTTTACGAGTTTGTATGCAA
189 AGCCCTATGCACAAACAAAGCTCTCCACGAAGTCCAAAGCATCAACTTTACGAGTTTGTATGCAA
* * *
6474 CACATCGTTCTTAGCGGTTTGTCGGAGTCAGATGAAATTTTTGGATAGCCCTATGCAGAAACAAA
254 CACATCGTTCTGAGCGGTTTGTCAGAGTCAGATGAAATTTTTGGACAGCCCTATGCAGAAACAAA
* * * * *
6539 GGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAATATCATTTTTAGCGAAA
319 GCTTTCATAGAAGCCCAAAACCTCAACTCTGAGCGATTCTATGCAAAACATCATTTTTAGCGAAA
* * * *
6604 GGCTCATTCCAGATGCATTTTTTGCGTCAACGTCTGCTCAAATGTCGTGCGTCGAATTGTGATGA
384 GGCTCATTCCAGAAGCATTTTTTGCGTCAACGACTGCTCAAAAGTCGTGCGTCGAATTGCGATGA
*
6669 GATTGTTGGACAGCCCTGTGCACAAACAAAGCTT
449 GATTGTTGGACAACCCTGTGCACAAACAAAGCTT
6703 TCACGAAGTC
Statistics
Matches: 422, Mismatches: 52, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
568 1 0.00
569 268 0.64
570 135 0.32
571 18 0.04
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (570 bp):
GTGTGTCGGAATGAGATGAACTTTTTAGACAGCCCTATGCACAAACAAAGCTTTCCTAGAAGCCC
AAAGCGTCAACTTTGAACAGTTCTATGCAAAACATAGTTCTTAGCATAACTCATTCAAGATGCAT
TTTTTCGCGCAACGAGTGCCCAAAAGTCGTGCATCGGAATGAGATGAGATTATTAGACAGCCCTA
TGCACAAACAAAGCTCTCCACGAAGTCCAAAGCATCAACTTTACGAGTTTGTATGCAACACATCG
TTCTGAGCGGTTTGTCAGAGTCAGATGAAATTTTTGGACAGCCCTATGCAGAAACAAAGCTTTCA
TAGAAGCCCAAAACCTCAACTCTGAGCGATTCTATGCAAAACATCATTTTTAGCGAAAGGCTCAT
TCCAGAAGCATTTTTTGCGTCAACGACTGCTCAAAAGTCGTGCGTCGAATTGCGATGAGATTGTT
GGACAACCCTGTGCACAAACAAAGCTTGTTAGGTAGCACTATGCACAAACAAAGCTCTCCTTGAT
GTCCAAAGCATCAACTTTGCGCATTTGTATGCAACACATCGTTCTTAGAA
Found at i:6985 original size:111 final size:111
Alignment explanation
Indices: 6807--7028 Score: 291
Period size: 111 Copynumber: 2.0 Consensus size: 111
6797 CCAAAAAGTC
* * * *
6807 GTGTGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTATGCAGAAACAAAGCTCTCCTCGAAGTCC
1 GTGTGTCGGAGTGAGATGAACTTGTTAGACAGCCCTATGCAGAAACAAAGCTCTCCTAGAAGCCC
* * * * *
6872 AAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCG
66 AAAACATCAACTTTGAGAGGTTGTATGCAAAACATCATTCTTAGCG
* * * * *
6918 GTGTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCCTAGATGCCC
1 GTGTGTCGGAGTGAGATGAACTTGTTAGACAGCCCTATGCAGAAACAAAGCTCTCCTAGAAGCCC
* * *
6983 AAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCG
66 AAAACATCAACTTTGAGAGGTTGTATGCAAAACATCATTCTTAGCG
7029 AAAGGCTCAT
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
111 94 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (111 bp):
GTGTGTCGGAGTGAGATGAACTTGTTAGACAGCCCTATGCAGAAACAAAGCTCTCCTAGAAGCCC
AAAACATCAACTTTGAGAGGTTGTATGCAAAACATCATTCTTAGCG
Found at i:7176 original size:427 final size:428
Alignment explanation
Indices: 6249--7591 Score: 2036
Period size: 427 Copynumber: 3.1 Consensus size: 428
6239 AACTTTTTGA
* ** ** * *
6249 ACAGCCCTGTGCACAAACAAAGCTTTC-CTAGAAGCCCAAAATCTCAACTTTGAACAG-TTCTAT
1 ACAGCCCTGTGCACAAACAAAGCTTTCAC--GAAGTCCAAAGCCTCAACTTTGCGCAGTTTTTGT
* ** * * ** * *
6312 GCAAAACATCA-TTTTTAGCGAAAGGCTCATTCAAGATGCATTTTTT-GCGCAACGAGTGCCCAA
64 GCTAAACAT-AGTCCTTAGC-AAA-ACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCCAAA
* ** * * * * * *
6375 ATGTCGTGCATC-GAATTGAGATGAGATTATTGGACAGCCCTATGCACAAACAAAGCT-TTCACG
126 AAGTCGTGTGTCGGAA-TGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCG
* *
6438 AAGTCCAAAGCCTCAACTTTACGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTC
190 AAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTC
* *
6503 AGATGAAATTTTTGGATAGCCCTATGCAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTT
255 AGATGAACTTTTTGGATAGCCCTGTGCAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTT
*
6568 TGAGCGGTTGTATGCAAAATATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGTCA
320 TGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCG-CA
** *
6633 ACGTCTGCTCAAATGTCGTGCGTCGAATTGTGATGAGATTGTTGG
384 ACGAGTGCTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGG
6678 ACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTTGC-CAGTTTTTGTGC
1 ACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTTGCGCAGTTTTTGTGC
6742 TAAACATAGTCCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCCAAAAAGTC
66 TAAACATAGTCCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCCAAAAAGTC
* *
6807 GTGTGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTATGCAGAAACAAAGCTCTCCTCGAAGTCC
131 GTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCC
* *
6872 AAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTGTGTCGGAGTGAGATGA
196 AAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTCAGATGA
* * * *
6937 ACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCCTAGATGCCCAAAACCTCAACTTTGAGCG
261 ACTTTTTGGATAGCCCTGTGCAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCG
*
7002 GTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTA
326 GTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTG
7067 CTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGG
391 CTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGG
7105 ACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTTGCGC-GTTTTTGTGC
1 ACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTTGCGCAGTTTTTGTGC
* **
7169 TAAACATAGTTCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCTGAAAAGTC
66 TAAACATAGTCCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCCAAAAAGTC
* * *
7234 GTGTGTCGGAATGAGATGAGCTTGTAAGACAGCGCTATGCACAAACAAAGCTCTCCTTGATGTCC
131 GTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCC
* * *
7299 AAAGCATCAACTTTGTGAGTTTGTATGCAACAAATCGTTCTTAGCGGTTTGTCGGAATCAGATGA
196 AAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTCAGATGA
** *
7364 ACTCATTGGATAGCCCTGTACAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCG
261 ACTTTTTGGATAGCCCTGTGCAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCG
*
7429 GTTGTATGCAAAACATCATTTTTAGCGAAAGGCTGATTCCAGATGCATTTTTTGCGCAACGAGTG
326 GTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTG
* *
7494 CTCAAATGTCGTGCATCGAATTGCGATGAGATTATTGG
391 CTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGG
*
7532 ACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAAGCCTCAACTTTGCGTAGTTT
1 ACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCC-AAAGCCTCAACTTTGCGCAGTTT
7592 GTATGCAACA
Statistics
Matches: 839, Mismatches: 66, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
426 17 0.02
427 548 0.65
428 242 0.29
429 31 0.04
430 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (428 bp):
ACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTTGCGCAGTTTTTGTGC
TAAACATAGTCCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCCAAAAAGTC
GTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCC
AAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTCAGATGA
ACTTTTTGGATAGCCCTGTGCAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCG
GTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTG
CTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGG
Found at i:7265 original size:157 final size:158
Alignment explanation
Indices: 6918--7344 Score: 443
Period size: 158 Copynumber: 2.7 Consensus size: 158
6908 GTTCTTAGCG
* * * * *
6918 GTGTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCCTAGATGCCC
1 GTGTGTCGGAATGAGATGAGCTTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCCT-GATGTCC
* * *
6983 AAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGC
65 AAAGCCTCAACTTTGAGCGGTTGTATGCAAAACATCATTCTTAGCGAAAGACTCATTCCAGATGC
*
7048 ATTTTTTGCGCAACGAGTACTCAAATGTC
130 ATTTTTTGCGCAACGAGTACTCAAAAGTC
* * * *
7077 GTGCGTC-GAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCAC-GAAGTC
1 GTGTGTCGGAA-TGAGATGAGCTTGTTGGACAGCCCTGTGCACAAACAAAGCTTTC-CTGATGTC
* * * * * * **
7140 CAAAGCCTCAACTTTGCGCGTTTTTGTGCTAAACAT-AGTTCTTAGC-AAA-ACTCTTTCTGGAT
64 CAAAGCCTCAACTTTGAGCGGTTGTATGCAAAACATCA-TTCTTAGCGAAAGACTCATTCCAGAT
* * *
7202 GCGTTTTTTCGCGCAACGAGTGCTGAAAAGTC
128 GCATTTTTT-GCGCAACGAGTACTCAAAAGTC
** * * *
7234 GTGTGTCGGAATGAGATGAGCTTGTAAGACAGCGCTATGCACAAACAAAGCTCTCCTTGATGTCC
1 GTGTGTCGGAATGAGATGAGCTTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCC-TGATGTCC
* * * * *
7299 AAAGCATCAACTTTGTGAGTTTGTATGCAACAA-ATCGTTCTTAGCG
65 AAAGCCTCAACTTTGAGCGGTTGTATGCAA-AACATCATTCTTAGCG
7345 GTTTGTCGGA
Statistics
Matches: 218, Mismatches: 40, Indels: 20
0.78 0.14 0.07
Matches are distributed among these distances:
156 18 0.08
157 66 0.30
158 86 0.39
159 47 0.22
160 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (158 bp):
GTGTGTCGGAATGAGATGAGCTTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTGATGTCCA
AAGCCTCAACTTTGAGCGGTTGTATGCAAAACATCATTCTTAGCGAAAGACTCATTCCAGATGCA
TTTTTTGCGCAACGAGTACTCAAAAGTC
Found at i:7625 original size:271 final size:269
Alignment explanation
Indices: 7101--7857 Score: 1013
Period size: 271 Copynumber: 2.8 Consensus size: 269
7091 GATGAGATTG
* * * * * * * * * *
7101 TTGGACAGCCCTGTGCACAAACAAAGCTTTCA-CGAAGTCCAAAGCCTCAACTTTGCGCGTTTTT
1 TTGGATAGCCCTGTACAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
* * * * * ** * *
7165 GTGCTAAACAT-AGTTCTTAGC-AAA-ACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCTG
66 ATGCAAAACATCA-TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTT-GCGCAACGAGTGCTC
* * * ** * * *
7227 AAAAGTCGTGTGTCGGAA-TGAGATGAGCTTGTAAGACAGCGCTATGCACAAACAAAGCTCTC-C
129 AAATGTCGTGCGTC-GAATTGAGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCAC
* * *
7290 TTGATGTCCAAAGCATCAACTTTGTGAGTTTGTATGCAACAAATCGTTCTTAGCGGTTTGTCGGA
193 --GAAGTCCAAAGCCTCAACTTTGCGAGTTTGTATGCAACAAATCGTTCTTAGCGGTTTGTCGGA
7355 ATCAGATGAACTCA
256 ATCAGATGAACTCA
7369 TTGGATAGCCCTGTACAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
1 TTGGATAGCCCTGTACAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
*
7434 ATGCAAAACATCATTTTTAGCGAAAGGCTGATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
66 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
* * *
7499 ATGTCGTGCATCGAATTGCGATGAGATTATTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAA
131 ATGTCGTGCGTCGAATTGAGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAA
* *
7564 GTCCAAAAGCCTCAACTTTGCGTAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTC
196 GTCC-AAAGCCTCAACTTTGCG-AGTTTGTATGCAACAAATCGTTCTTAGCGGTTTGTCGGAATC
**
7629 AGATGAACTTT
259 AGATGAACTCA
*
7640 TTGGATAGCCCTGTGCAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
1 TTGGATAGCCCTGTACAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
* **
7705 ATGCGAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGTCAACGTCTGCTCA
66 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCG-CAACGAGTGCTCA
*
7770 AATGTCGTGCGTCGAATTGTGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGA
130 AATGTCGTGCGTCGAATTGAGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGA
7835 AGTCCAAAGCCTCAACTTTGCGA
195 AGTCCAAAGCCTCAACTTTGCGA
7858 ATTTTTGTGC
Statistics
Matches: 434, Mismatches: 46, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
268 28 0.06
269 51 0.12
270 81 0.19
271 196 0.45
272 78 0.18
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (269 bp):
TTGGATAGCCCTGTACAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
ATGTCGTGCGTCGAATTGAGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAA
GTCCAAAGCCTCAACTTTGCGAGTTTGTATGCAACAAATCGTTCTTAGCGGTTTGTCGGAATCAG
ATGAACTCA
Found at i:8138 original size:111 final size:111
Alignment explanation
Indices: 7933--8154 Score: 254
Period size: 111 Copynumber: 2.0 Consensus size: 111
7923 CCCAAAAGTC
* *
7933 GTGTGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTATGCAGAAACAAAGCTCTCCTCGAAGTCC
1 GTGTGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGCCC
* * * * *
7998 AAAGCATCAACTTTGCGCGTTTGTTTGCAACACATCGTTCTTAGCG
66 AAAGCATCAACTTTGAGCGTTTCTATGCAAAACATCATTCTTAGCG
* * * * *
8044 GTGTGTTGGAGTGAGATGAGCTT-TTTGAACAGTC-CTATGGACAAACAAAGCTTTCCTGGAAGC
1 GTGTGTCGGAGTGAGATGAGCTTGTTAG-ACAG-CGCTATGCACAAACAAAGCTCTCCTCGAAGC
* *
8107 CCAAAATC-TCAACTTTGAGCAG-TTCTATGCAAAACATCATTTTTAGCG
64 CC-AAAGCATCAACTTTGAGC-GTTTCTATGCAAAACATCATTCTTAGCG
8155 AAAGGCTCAT
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
110 3 0.03
111 84 0.90
112 6 0.06
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (111 bp):
GTGTGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGCCC
AAAGCATCAACTTTGAGCGTTTCTATGCAAAACATCATTCTTAGCG
Found at i:8226 original size:699 final size:696
Alignment explanation
Indices: 6678--8391 Score: 2542
Period size: 699 Copynumber: 2.5 Consensus size: 696
6668 AGATTGTTGG
* * * * * * * *
6678 ACAGCCCTGTGCACAAACAAAGCTTTCA-CGAAGTCCAAAGCCTCAACTTTG-CCAGTTTTTGTG
1 ACAGCCCTATACACAAACAAAGCTTTCATAGAAGCCCAAAACCTCAACTTTGAGCAG-TTCTATG
* ** * * ** *
6741 CTAAACAT-AGTCCTTAGC-AAA-ACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGC-CAAA
65 CAAAACATCA-TTTTTAGCGAAAGGCTCATTCAAGATGCATTTTTT-GCGCAACGAGTGCTC-AA
* ** * * * * * * * * * * *
6802 AAGTCGTGTGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTATGCAGAAACAAAGCTCTCCTCGA
127 ATGTCGTGCATCGAAATGCGATGAGATTATTGGACAGCCCTGTGCACAAACAAAGCT-TTCACGA
* * *
6867 AGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTGTGTCGGAGTGA
191 AGTCCAAAGCCTCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTCA
* *
6932 GATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCCTAGATGCCCAAAACCTCAACTTT
256 GATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCATAGAAGCCCAAAACCTCAACTTT
6997 GAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAAC
321 GAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAAC
*
7062 GAGTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAG
386 GACTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAG
** *
7127 CTTTCACGAAGTCCAAAGCCTCAACTTTGCGCGTTTTTGTGCTAAACATAGTTCTTAGCAAAACT
451 CTTTCACGAAGTCCAAAGCCTCAACTTTGCGAATTTTTGTGCTAAACATAGTCCTTAGCAAAACT
**
7192 CTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCTGAAAAGTCGTGTGTCGGAATGAGATGAGCTT
516 CTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCCCAAAAGTCGTGTGTCGGAATGAGATGAGCTT
* * *
7257 GTAAGACAGCGCTATGCACAAACAAAGCTCTCCTTGATGTCCAAAGCATCAACTTTGTGAGTTTG
581 GTAAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTG
* *
7322 TATGCAACAAATCGTTCTTAGCGGTTTGTCGGAATCAGATGAACTCATTGG
646 TATGCAACAAATCGTTCTTAGCGGTGTGTCGGAATCAGATGAACTCATTGA
* * * * * *
7373 ATAGCCCTGTACAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGC
1 ACAGCCCTATACACAAACAAAGCTTTCATAGAAGCCCAAAACCTCAACTTTGAGCAGTTCTATGC
* *
7438 AAAACATCATTTTTAGCGAAAGGCTGATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGT
66 AAAACATCATTTTTAGCGAAAGGCTCATTCAAGATGCATTTTTTGCGCAACGAGTGCTCAAATGT
*
7503 CGTGCATCGAATTGCGATGAGATTATTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCC
131 CGTGCATCGAAATGCGATGAGATTATTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCC
7568 AAAAGCCTCAACTTTGCGTAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTCAGAT
196 -AAAGCCTCAACTTTGCG-AGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTCAGAT
* *
7633 GAACTTTTTGGATAGCCCTGTGCAGAAACAAAGGTTTCATAGAAGCCCAAAACCTCAACTTTGAG
259 GAACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCATAGAAGCCCAAAACCTCAACTTTGAG
* *
7698 CGGTTGTATGCGAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGTCAACGT
324 CGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCG-CAACGA
* *
7763 CTGCTCAAATGTCGTGCGTCGAATTGTGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCT
388 CTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCT
7828 TTCACGAAGTCCAAAGCCTCAACTTTGCGAATTTTTGTGCTAAACATAGTCCTTAGCAAAACTCT
453 TTCACGAAGTCCAAAGCCTCAACTTTGCGAATTTTTGTGCTAAACATAGTCCTTAGCAAAACTCT
*
7893 TTCTGGATGCGTTTTTTCGCGCAACGAGTGCCCAAAAGTCGTGTGTCGGAGTGAGATGAGCTTGT
518 TTCTGGATGCGTTTTTTCGCGCAACGAGTGCCCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGT
* * * *
7958 TAGACAGCGCTATGCAGAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGCGTTTGTT
583 AAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTA
* * * * * **
8023 TGCAACACATCGTTCTTAGCGGTGTGTTGGAGTGAGATGAGCTTTTTGA
648 TGCAACAAATCGTTCTTAGCGGTGTGTCGGAATCAGATGAACTCATTGA
* ** * * *
8072 ACAGTCCTATGGACAAACAAAGCTTTCCTGGAAGCCCAAAATCTCAACTTTGAGCAGTTCTATGC
1 ACAGCCCTATACACAAACAAAGCTTTCATAGAAGCCCAAAACCTCAACTTTGAGCAGTTCTATGC
8137 AAAACATCATTTTTAGCGAAAGGCTCATTCAAGATGCATTTTTTGCGCAACGAGTGCTCAAATGT
66 AAAACATCATTTTTAGCGAAAGGCTCATTCAAGATGCATTTTTTGCGCAACGAGTGCTCAAATGT
8202 CGTGCATCGAAATGCGATGAGATTATTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCC
131 CGTGCATCGAAATGCGATGAGATTATTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCC
* *
8267 AAAGCCTAAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGCTTGTCGGAGTCAGATGA
196 AAAGCCTCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTCAGATGA
* * * *
8332 ACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCA-CGAAGTCCAAAGCCTCAACTTTG
261 ACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCATAGAAGCCCAAAACCTCAACTTTG
8392 TGCGTTTTTG
Statistics
Matches: 919, Mismatches: 91, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
695 24 0.03
696 68 0.07
697 163 0.18
698 195 0.21
699 469 0.51
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (696 bp):
ACAGCCCTATACACAAACAAAGCTTTCATAGAAGCCCAAAACCTCAACTTTGAGCAGTTCTATGC
AAAACATCATTTTTAGCGAAAGGCTCATTCAAGATGCATTTTTTGCGCAACGAGTGCTCAAATGT
CGTGCATCGAAATGCGATGAGATTATTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCC
AAAGCCTCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTCAGATGA
ACTTTTTGGACAGCCCTGTGCAGAAACAAAGCTTTCATAGAAGCCCAAAACCTCAACTTTGAGCG
GTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGACTA
CTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTC
ACGAAGTCCAAAGCCTCAACTTTGCGAATTTTTGTGCTAAACATAGTCCTTAGCAAAACTCTTTC
TGGATGCGTTTTTTCGCGCAACGAGTGCCCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTAAG
ACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGC
AACAAATCGTTCTTAGCGGTGTGTCGGAATCAGATGAACTCATTGA
Found at i:8637 original size:110 final size:111
Alignment explanation
Indices: 8438--8708 Score: 330
Period size: 110 Copynumber: 2.5 Consensus size: 111
8428 AGCTCTCCTC
* * * * * *
8438 GTCCAAAGCATCAACTTTACGCGTTTGTTTGCAACACATCGTTCTTAGCGGTGTGTTGGAGTGAG
1 GTCCAAAGCCTCAACTTTGCGCGTTTGTATGAAACACATCGTTCTTAGCGGTGTGTCGGAGTCAG
* * *
8503 ATGAGCTTTTTGAACAGCCTTGTGCACAAACAAAGCTTTCA-CGAA
66 ATGAACTTTTTGAACAGCCCTGTGCACAAACAAAGCTTTCATAGAA
* *
8548 GTCCAAAGCCTCAACTTTGCGAGTTTGTATGAAACACATCGTTCTTAGCGGTTTGTCGGAGTCAG
1 GTCCAAAGCCTCAACTTTGCGCGTTTGTATGAAACACATCGTTCTTAGCGGTGTGTCGGAGTCAG
* * * *
8613 ATGAACTTTTTGGATAGCCCTGTGCAGAAACAAAGGTTTCATAGAA
66 ATGAACTTTTTGAACAGCCCTGTGCACAAACAAAGCTTTCATAGAA
* * * * * *
8659 GCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAA-ACATCATTTTTAGCG
1 GTCCAAAGCCTCAACTTTGCGCGTTTGTATG-AAACACATCGTTCTTAGCG
8709 AAAGGCTCAT
Statistics
Matches: 137, Mismatches: 22, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
110 92 0.67
111 42 0.31
112 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (111 bp):
GTCCAAAGCCTCAACTTTGCGCGTTTGTATGAAACACATCGTTCTTAGCGGTGTGTCGGAGTCAG
ATGAACTTTTTGAACAGCCCTGTGCACAAACAAAGCTTTCATAGAA
Found at i:8939 original size:157 final size:158
Alignment explanation
Indices: 8601--9025 Score: 408
Period size: 159 Copynumber: 2.7 Consensus size: 158
8591 CTTAGCGGTT
* * * * * * *
8601 TGTCGGAGTCAGATGAACTTTTTGGATAGCCCTGTGCAGAAACAAAGGTTTCATAGAAGCCCAAA
1 TGTCGGAGTGAGATGAGCTTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCA-CGAAGTCCAAA
* * * ** *
8666 ACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATT
65 GCCTCAACTTTGCGCGTTTGTATGCAAAACATCATCCTTAGCGAAAGACTCATTCCAGATGCATT
* *
8731 TTTTGCGCAACGAGTGCTCAAATGTCGTG
130 TTTTGCGCAACGAGTGCCCAAAAGTCGTG
* * * * * * *
8760 CGTTGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAG
1 TGTCGGAGTGAGATGAGCTTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAAGTCCAAAG
* * * * *
8825 CCTCAACTTTGCGCGTTTTTGTGCTAAACAT-AGTCCTTAGC-AAA-ACTC-TTTCAGGATGCGT
66 CCTCAACTTTGCGCGTTTGTATGCAAAACATCA-TCCTTAGCGAAAGACTCATTCCA-GATGCAT
8886 TTTTTCGCGCAACGAGTGCCCAAAAGTCGTG
129 TTTTT-GCGCAACGAGTGCCCAAAAGTCGTG
* * * * * *
8917 TGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTATGTAGAAACAAAGCTCTCCTCGAAGTCCAAA
1 TGTCGGAGTGAGATGAGCTTGTTGGACAGCCCTGTGCAGAAACAAAGCT-TTCACGAAGTCCAAA
* * * * * * *
8982 GCATTTAACTTTACGCGTTTGTTTGCAACACATCGTTCTTAGCG
65 GC-CTCAACTTTGCGCGTTTGTATGCAAAACATCATCCTTAGCG
9026 GTGTGTTGGA
Statistics
Matches: 210, Mismatches: 49, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
155 4 0.02
156 14 0.07
157 65 0.31
158 56 0.27
159 71 0.34
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (158 bp):
TGTCGGAGTGAGATGAGCTTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAAGTCCAAAG
CCTCAACTTTGCGCGTTTGTATGCAAAACATCATCCTTAGCGAAAGACTCATTCCAGATGCATTT
TTTGCGCAACGAGTGCCCAAAAGTCGTG
Done.